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01-12-2017, 10:21 AM
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Member
Location: USA Join Date: Jul 2011
Posts: 18
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Optimal insert size for de novo assembly from PE150 reads
In the past, I have had reasonable success with de novo assembly of non-model eukaryotes with insert sizes of ~300 bp, using 100 bp PE and Trinity for assembly.
With 150 bp PE reads and the current version of Trinity, is a mean insert size of ~300 bp still generally optimal, or would a longer mean insert size likely benefit the assembly? (RNA will be poly-a selected, with libraries constructed using the NEBNext® Ultra™ Directional kit.) Thanks in advance! |
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